The pairwise alignment has been generated with the "genewise" program of the Wise2 package. The output shows the protein sequence on the first line, followed by a line indicating the similarity level of the match, followed by 4 lines representing the DNA sequence; The DNA sequence descending in triplets, each triplet being a codon. The translation of each codon is shown above it.
Between the two protein sequences a line indicating the similarity of the match is printed. "+" indicates a conservative mismatch while "- "indicates a dramatic one. Mismatches are indicated by "***" in the left column in addition to "!" at the relevant position(s).
genewise $Name: wise2-1-20c $ (unreleased release)
This program is freely distributed under a GPL. See source directory
Copyright (c) GRL limited: portions of the code are from separate copyright
Query protein: IRK3_HUMAN
Comp Matrix: blosum62.bla
Gap open: 12
Gap extension: 2
Start/End default
Target Sequence HS509641_2
Strand: forward
Start/End (protein) default
Gene Paras: human.gf
Codon Table: codon.table
Subs error: 1e-05
Indel error: 1e-05
Model splice? model
Model codon bias? flat
Model intron bias? tied
Null model syn
Algorithm 623
genewise output
Score 1233.73 bits over entire alignment
Scores as bits over a synchronous coding model
Warning: The bits scores is not probablistically correct for single seqs
See WWW help for more info.
IRK3_HUMAN 1 MSALRRKFGDDYQVVTTSSSGSGLQPQGPGQDPQQQLVPKKKRQRFVDK
MSALRRKFGDDYQVVTTSSSGSGLQPQGPGQDPQQQLVPKKKRQRFVDK
MSALRRKFGDDYQVVTTSSSGSGLQPQGPGQDPQQQLVPKKKRQRFVDK
HS509641_2 1 atgccaatgggtcggaattagtgtcccgcgcgcccccgcaaaccctgga
tcctggatgaaaattccccggcgtacagcgaacaaattcaaagagttaa
gtacagatgcttgagcagcccgcggcggacgctgggtgcggggggcgcg
IRK3_HUMAN 50 NGRCNVQHGNLGSETSRYLSDLFTTLVDLKWRWNLFIFILTYTVAWLFM
NGRCNVQHGNLGSETSRYLSDLFTTLVDLKWRWNLFIFILTYTVAWLFM
NGRCNVQHGNLGSETSRYLSDLFTTLVDLKWRWNLFIFILTYTVAWLFM
HS509641_2 148 agctagccgacgagaactctgctaacggcatctactatacataggtcta
agggataagatggacggatcattccttatagggattttttcactcgttt
ccgctagcccgccgaccccgccccgggccggcgccccctccccgcgtcg
IRK3_HUMAN 99 ASMWWVIAYTRGDLNKAHVGNYTPCVANVYNFPSAFLFFIETEATIGYG
ASMWWVIAYTRGDLNKAHVGNYTPCVANVYNFPSAFLFFIETEATIGYG
ASMWWVIAYTRGDLNKAHVGNYTPCVANVYNFPSAFLFFIETEATIGYG
HS509641_2 295 gtattgagtacggcaagcggatactggagtatctgtcttagaggaagtg
cctggttcacggataacatgaaccgtcataatccctttttacacctgag
gcggggccctgccgcaccctccgtcgctctccttccccccgggcccctc
IRK3_HUMAN 148 YRYITDKCPEGIILFLFQSILGSIVDAFLIGCMFIKMSQPKKRAETLMF
YRYITDKCPEGIILFLFQSILGSIVDAFLIGCMFIKMSQPKKRAETLMF
YRYITDKCPEGIILFLFQSILGSIVDAFLIGCMFIKMSQPKKRAETLMF
HS509641_2 442 tctaagatcggaactctctacgtagggtcagtataaatccaacggacat
agatcaagcagttttttacttgcttactttggtttatcacaagcacttt
caccacgccgcccccccgccgcccgcccccccgccggcgcggccgccgc
IRK3_HUMAN 197 SEHAVISMRDGKLTLMFRVGNLRNSHMVSAQIRCKLLKSRQTPEGEFLP
SEHAVISMRDGKLTLMFRVGNLRNSHMVSAQIRCKLLKSRQTPEGEFLP
SEHAVISMRDGKLTLMFRVGNLRNSHMVSAQIRCKLLKSRQTPEGEFLP
HS509641_2 589 agcggataaggacacatcggaccaacagtgcactaccatccacgggtcc
gaacttctgagatctttgtgatgagattccatggattacgaccagattc
cgcggccggcaacgtgcggccgccccgccggtccggcatggatgtgctc
IRK3_HUMAN 246 LDQLELDVGFSTGADQLFLVSPLTICHVIDAKSPFYDLSQRSMQTEQFE
LDQLELDVGFSTGADQLFLVSPLTICHVIDAKSPFYDLSQRSMQTEQFE
LDQLELDVGFSTGADQLFLVSPLTICHVIDAKSPFYDLSQRSMQTEQFE
HS509641_2 736 cgccgcgggtaagggcctcgtccaatcgaggaacttgctccaacagctg
taatatatgtgcgcaattttcctctgattacagctaatcaggtacaata
tcatagtatttagatatttgcccatccgctcaccttcacgacgatagcg
IRK3_HUMAN 295 IVVILEGIVETTGMTCQARTSYTEDEVLWGHRFFPVISLEEGFFKVDYS
IVVILEGIVETTGMTCQARTSYTEDEVLWGHRFFPVISLEEGFFKVDYS
IVVILEGIVETTGMTCQARTSYTEDEVLWGHRFFPVISLEEGFFKVDYS
HS509641_2 883 aggacggaggaagaatcgcattaggggctgccttcgattgggttaggtt
tttttagttaccgtcgacgccacaaattggagttcttctaagttataac
tcccaactgaatggttataaattatattgttttttatcaagactattcc
IRK3_HUMAN 344 QFHATFEVPTPPYSVKEQEEMLLMSSPLIAPAITNSKERHNSVECLDGL
QFHATFEVPTPPYSVKEQEEMLLMSSPLIAPAITNSKERHNSVECLDGL
QFHATFEVPTPPYSVKEQEEMLLMSSPLIAPAITNSKERHNSVECLDGL
HS509641_2 1030 ctcgatggcacctagagcggaccattctagcgaaaaagacatggttggc
atacctatccccagtaaaaattttcccttccctcagaagaactagtagt
gccaatacccatctgagggagtcggctaaaacatccaaatttgacataa
IRK3_HUMAN 393 DDITTKLPSKLQKITGREDFPKKLLRMSSTTSEKAYSLGDLPMKLQRIS
DDITTKLPSKLQKITGREDFPKKLLRMSSTTSEKAYSLGDLPMKLQRIS
DDITTKLPSKLQKITGREDFPKKLLRMSSTTSEKAYSLGDLPMKLQRIS
HS509641_2 1177 ggaaaacctaccaaagaggtcaactaaataatgagtatggtcaacccaa
aatccatccataatcggaatcaattgtgccccaacagtgatctatagtg
ttttaaaatgggattaaactcaacgggttataaacccgacgcgataaat
IRK3_HUMAN 442 SVPGNSEEKLVSKTTKMLSDPMSQSVADLPPKLQKMAGGAARMEGNLPA
SVPGNSEEKLVSKTTKMLSDPMSQSVADLPPKLQKMAGGAARMEGNLPA
SVPGNSEEKLVSKTTKMLSDPMSQSVADLPPKLQKMAGGAARMEGNLPA
HS509641_2 1324 tgcgatggacgtaaaaattgcaactgggtccaccaagggggaaggaccg
ctcgacaaattcaccattcactgactcatccataatcggccgtagatcc
atgccaaaagataccggattcgcgtgttgaagtaggtaaatggagctac
IRK3_HUMAN 491 KLRKMNSDRFT
KLRKMNSDRFT
KLRKMNSDRFT
HS509641_2 1471 ataaaatgcta
atgatacagtc
aaaagcttcca
//
cmbi.ru.nl), 24-Jul-2003